RetrogeneDB ID: retro_vpac_144

Retrocopy location

• Organism: Alpaca (Vicugna pacos)
• Coordinates: GeneScaffold_2117:412413..412590(-)
• Located in intron of: ENSVPAG00000008163

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSVPAG00000006780
• Aliases: None
• Description: None

Sequence

>retro_vpac_144
AGTCTCAGGACCTGGTTCCCCCCTGGGTTTTACCTGCAGTGCCTGATACTAAATGATATCAGCTTGTTTCTGGAGCTGAA
TCTCTAGAACAAGTGAAACTGTCTTCATCTGTGATTGTGGATCTGCAGAGTTGGGGGAGAAACACTATGGGAAGAGACAA
CAGGCTCTTTTAAGTGG

Alignment

ORF - retro_vpac_144 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.38 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  SLRTWFPP-WILLAVPDTK-DTSLFLELNLNKVN-SETVFICDCGSAE-W-GEALWED--GSFKW
          SLRTWFPP.W.L.AVPDTK.D.SLFLE..LN..N.SETVFICDCGSAE.W.GE.LWE...GSFKW
Retrocopy SLRTWFPP<WVLPAVPDTK>DISLFLE--LNL*N>SETVFICDCGSAE>W>GETLWEETTGSFKW

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Vicugna pacos was not studied using RNA-Seq expression data.

ChIP-Seq

Vicugna pacos was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_vpac_144 retrocopy.

TSS

Vicugna pacos was not studied using FANTOM5 data.

Lab

retro_vpac_144 was not experimentally validated.

Homology

Retrocopy orthology:

Vicugna pacos does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Vicugna pacos	ENSVPAG00000006780	2 retrocopies	retro_vpac_144 , retro_vpac_254,